2OOLA

Crystal structure of the chromophore-binding domain of an unusual bacteriophytochrome rpbphp3 from r. palustris
Warning
  • Chain breaks within knot 41 (displayed as a gray area on the plot and as '-' on the sequence). The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Knot K 41 41
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
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41 14-257 244 1-13, 258-308 13 51 knot
Chain Sequence
TECDREPIHIPGAIQPHGYLFVVSETDLRIASVSANVEDLLRQPPASLLNVPIAHYLTAASAARLTHALHG----AINPIRLDVVTPDGERAFNGILHRHDSIVILELEPRDESRYTNEFFRSVRVAIRRLQTAADLPTACWIAASEVRRITGFDRIKVYQFAADWSGQVIAEDRDSGIPSLLDFHFPSSDIPAQSRALYTINPVRIIPDIGYRPSPLVPDINPRLGGPIDLSFSVLRSVSPTHLEYMVNMGMHAAMSISIVRDNRLWGMISCHNLTPRFVSYEVRQACELIAQVLTWQIGVLEEAEI
Whole chain analysis
Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1

Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
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4.1 12-292 281 1-11, 293-304 11 12 knot
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3.2m 13-250 238 1-12 260-304 251-259 12 45 slipknot
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3.2m 9-259 251 1-8 263-304 260-262 8 42 slipknot
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3.2m 12-261 250 1-11 272-304 262-271 11 33 slipknot
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3.2m 12-273 262 1-11 291-304 274-290 11 14 slipknot
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4.1 14-257 244 1-8, 265-304 9-13, 258-264 8 40 slipknot
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3.2 15-293 279 294-304 1-11 12-14 11 10 slipknot
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3.2 16-298 283 299-304 1-14 15-15 14 5 slipknot
missing residues 72-75
publication title Crystal structure of the chromophore binding domain of an unusual bacteriophytochrome, RpBphP3, reveals residues that modulate photoconversion.
pubmed doi rcsb
structure length 304
molecule tags Signaling protein
source organism Rhodopseudomonas palustris
sequence length 308
total genus Genus: 100
molecule keywords Sensor protein
ec nomenclature
pdb deposition date 2007-01-25
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01590 GAF GAF domain
Image from the rcsb pdb (www.rcsb.org)
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similar chains in the KnotProt database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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